Summary: Short chain fatty acid transporter
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Short chain fatty acid transporter Provide feedback
This family consists of two sequences annotated as short chain fatty acid transporters, however, there are no references giving details of experimental characterisation of this function.
Internal database links
|SCOOP:||Wzy_C DUF805 DUF2116|
|Similarity to PfamA using HHSearch:||DcuC|
External database links
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- the UniProt description of the protein sequence
- the number of residues in the sequence
- the Pfam graphic itself.
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This superfamily of secondary carriers specific for cationic and anionic compounds, has been termed the ion transporter (IT) superfamily .
The clan contains the following 17 members:ABG_transport ArsB CitMHS DctM DcuA_DcuB DcuC DUF1504 DUF1646 DUF401 GntP_permease Lactate_perm MatC_N Na_H_antiport_2 Na_H_antiporter Na_sulph_symp NhaB SCFA_trans
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
You can see the alignments as HTML or in three different sequence viewers:
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
|Author:||Bashton M, Bateman A|
|Number in seed:||4|
|Number in full:||740|
|Average length of the domain:||418.50 aa|
|Average identity of full alignment:||44 %|
|Average coverage of the sequence by the domain:||98.19 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||9|
|Download:||download the raw HMM for this family|
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